Re: Antwort: Concatenating Tiff stacks from ImageJ using libtiff tifftools

Posted by Chang, Joshua on Apr 23, 2008; 10:32pm
URL: http://imagej.273.s1.nabble.com/Concatenating-Tiff-stacks-from-ImageJ-using-libtiff-tifftools-tp3696458p3696460.html

Thanks Joachim, I appreciate your help.

I uploaded a part of a representative image here:

http://brennanlab.mednet.ucla.edu/example/5slices.tiff  (5 tiff directories, 8-bit, 320x240, 375K total)

KCB:example joshchang$ tiffinfo 5slices.tiff
TIFFReadDirectory: Warning, 5slices.tiff: unknown field with tag 50838 (0xc696) encountered.
TIFFFieldWithTag: Internal error, unknown tag 0xc697.
TIFF Directory at offset 0x8 (8)
Subfile Type: (0 = 0x0)
Image Width: 320 Image Length: 240
Bits/Sample: 8
Compression Scheme: None
Photometric Interpretation: min-is-black
Samples/Pixel: 1
Rows/Strip: 240
Planar Configuration: single image plane
ImageDescription: ImageJ=1.40c
images=5
slices=5
loop=false

Now say I want to take slices 2, 3 and 4 out and combine them into a new image I did

KCB:example joshchang$ tiffcp 5slices.tiff,2,3,4 result.tiff
TIFFReadDirectory: Warning, 5slices.tiff: unknown field with tag 50838 (0xc696) encountered.
TIFFFieldWithTag: Internal error, unknown tag 0xc697.
TIFFReadDirectory: Warning, 5slices.tiff: unknown field with tag 50838 (0xc696) encountered.
TIFFFieldWithTag: Internal error, unknown tag 0xc697.
TIFFReadDirectory: Warning, 5slices.tiff: unknown field with tag 50838 (0xc696) encountered.
TIFFFieldWithTag: Internal error, unknown tag 0xc697.
TIFFReadDirectory: Warning, 5slices.tiff: unknown field with tag 50838 (0xc696) encountered.
TIFFFieldWithTag: Internal error, unknown tag 0xc697.

And the result is http://brennanlab.mednet.ucla.edu/example/result.tiff

The first slice looks like it should, but the slices afterward are weird.

Concatenation across files gives the same type of result:

tiffcp 5slices.tiff 5slices.tiff combined.tiff   http://brennanlab.mednet.ucla.edu/example/combined.tiff

Thanks!



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